genome.fa.s407.2.7.7.80.10.50.1000.9.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  9  of  28  ( 3302 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262842--1262912	5	14.6	5	77	11	58	83	12	1	2	0.83
1262848--1262918	8	8.5	8	78	10	72	84	11	1	2	0.79
1264306--1264381	28	2.8	27	84	4	98	21	32	15	30	1.94
1264306--1264399	27	3.4	27	82	2	107	20	28	17	34	1.95
1264306--1264423	27	4.3	27	76	6	76	19	30	16	33	1.94
1264393--1264508	32	3.6	32	86	2	160	22	30	9	37	1.86
1264616--1264740	49	2.5	51	85	3	164	27	27	14	31	1.95
1264612--1264756	52	2.8	52	82	4	143	26	26	15	31	1.95
1264665--1264847	91	2.0	90	84	6	235	27	26	15	30	1.96
1264757--1264887	52	2.5	52	84	7	160	26	28	13	31	1.94
1264616--1265015	143	2.8	141	84	4	475	27	25	14	32	1.95
1265789--1265840	20	2.7	19	82	5	59	36	17	15	30	1.91
1270217--1270709	61	8.5	59	75	11	373	37	13	24	24	1.91
1270322--1270708	113	3.4	111	81	4	443	36	14	24	24	1.93
1270766--1270920	31	4.9	31	78	8	134	22	16	30	30	1.96
1270795--1270921	31	4.0	32	83	5	150	21	15	31	31	1.94
1270904--1271069	33	4.9	33	83	2	188	40	15	24	19	1.89
1270922--1271069	67	2.2	66	84	3	199	43	13	24	18	1.86
1270917--1271215	34	9.3	33	77	10	235	38	11	28	22	1.89
1270949--1271126	67	2.7	67	78	7	172	41	11	27	19	1.85
1271075--1271146	27	2.7	27	95	0	126	29	12	34	23	1.92
1271220--1271310	34	2.7	33	81	6	119	36	14	26	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271220--1271430	30	6.8	30	77	11	174	33	14	28	23	1.94
1271290--1271430	60	2.3	60	89	2	212	29	16	30	24	1.96
1277740--1277765	13	2.0	13	100	0	52	30	15	15	38	1.88
1277720--1277783	33	2.0	32	90	3	101	26	14	20	39	1.90
1277825--1277877	20	2.6	21	82	8	65	30	16	15	37	1.90
1277865--1277889	13	1.9	13	100	0	50	36	16	16	32	1.90
1280333--1280370	13	2.9	13	100	0	76	36	15	15	31	1.90
1286485--1286536	20	2.7	20	87	3	70	28	11	21	38	1.88
1286652--1286690	20	2.0	19	95	5	69	30	10	23	35	1.88
1287666--1287704	20	1.9	21	84	5	53	38	7	15	38	1.76
1287770--1287823	20	2.7	20	88	2	81	33	20	11	35	1.88
1289107--1289153	18	2.6	18	79	0	58	23	12	2	61	1.42
1289117--1289466	164	2.1	164	81	7	408	31	10	8	50	1.67
1289974--1290024	18	2.9	17	86	13	77	84	3	11	0	0.75
1289962--1290022	19	3.1	19	88	7	86	80	4	14	0	0.87
1290597--1290635	19	2.1	19	85	0	51	33	5	20	41	1.74
1294410--1294435	13	2.0	13	100	0	52	30	15	15	38	1.88
1294474--1294549	21	3.7	21	80	3	100	28	17	11	42	1.84
1294495--1294567	20	3.6	20	81	3	101	31	19	13	35	1.91
1294474--1294567	41	2.3	41	98	0	179	29	18	12	39	1.88
1297021--1297058	13	2.9	13	96	0	67	31	15	18	34	1.92
1299138--1299168	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303229--1303254	13	2.0	13	100	0	52	30	15	15	38	1.88
1303293--1303368	21	3.7	21	80	3	100	28	17	11	42	1.84
1303314--1303386	20	3.6	20	81	3	101	31	19	13	35	1.91
1303293--1303386	41	2.3	41	98	0	179	29	18	12	39	1.88
1304493--1304522	13	2.3	13	94	0	51	36	3	20	40	1.69
1304568--1304605	20	1.9	19	89	5	58	28	21	13	36	1.91
1306609--1306682	21	3.6	20	68	13	51	47	0	18	33	1.49
1306906--1306958	20	2.7	20	75	21	58	54	16	0	28	1.43
1315805--1315829	13	1.9	13	100	0	50	32	16	20	32	1.94
1318097--1318148	20	2.7	20	91	8	81	38	17	15	28	1.90
1318528--1318564	14	2.6	14	95	0	65	21	8	24	45	1.78
1322535--1322564	13	2.3	13	94	0	51	36	3	16	43	1.65
1324846--1324883	20	1.9	20	94	0	67	57	21	0	21	1.40
1326552--1326632	40	2.0	40	83	4	101	40	16	25	17	1.89
1327074--1327406	76	4.4	76	76	8	268	44	11	17	27	1.83
1327074--1327426	153	2.3	152	78	9	344	44	11	16	28	1.82
1330243--1330278	7	5.0	7	86	6	54	33	0	0	66	0.92
1330243--1330278	15	2.5	14	90	4	54	33	0	0	66	0.92
1333635--1333669	18	1.9	18	94	0	61	20	0	0	80	0.72
1334153--1334196	22	2.0	21	87	12	63	40	0	0	59	0.98
1334597--1334674	23	3.2	25	75	19	74	51	0	2	46	1.14
1334630--1334674	15	3.0	15	84	15	58	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334621--1334677	21	2.8	20	80	17	64	54	0	0	45	0.99
1334583--1334707	16	7.8	16	71	16	64	52	0	3	43	1.22
1334886--1334917	2	16.0	2	93	0	55	46	0	0	53	1.00
1335006--1335037	4	8.2	4	93	6	57	75	0	0	25	0.81
1335120--1335155	17	2.1	17	94	0	63	44	2	5	47	1.41
1335547--1335605	16	3.8	16	71	6	50	37	5	5	52	1.46
1335708--1335732	8	3.1	8	100	0	50	76	0	0	24	0.80
1336956--1336980	2	12.5	2	100	0	50	48	0	0	52	1.00
1339067--1339111	16	2.8	16	79	0	63	51	15	11	22	1.75
1339644--1339677	17	1.9	18	88	5	52	67	2	0	29	1.05
1341293--1341338	21	2.1	22	84	11	60	34	8	8	47	1.65
1344291--1344315	4	6.2	4	100	0	50	24	0	0	76	0.80
1345323--1345383	28	2.2	28	90	0	95	8	21	21	49	1.75
1345674--1345773	8	12.1	8	70	17	53	21	0	3	76	0.93
1345673--1345771	15	6.5	15	65	19	53	20	0	3	76	0.91
1345671--1345773	37	2.8	37	79	7	111	21	0	2	75	0.93
1364690--1364750	28	2.2	28	90	0	95	8	24	21	45	1.78
1365058--1365108	15	3.5	15	81	10	61	23	0	0	76	0.79
1365050--1365113	27	2.3	28	81	10	78	23	0	4	71	1.04
1365048--1365104	20	2.8	20	84	7	71	22	0	1	75	0.90
1367064--1367088	12	2.1	12	100	0	50	36	0	24	40	1.55
1368930--1368983	21	2.7	20	82	5	65	31	12	18	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369028--1369058	13	2.4	13	94	0	53	35	16	12	35	1.87
1369012--1369078	33	2.0	32	88	11	100	35	13	17	32	1.89
1374319--1374514	98	2.0	98	100	0	392	28	29	6	35	1.81
1378202--1378232	15	2.1	15	93	0	53	12	22	16	48	1.80
1382380--1382449	19	3.5	20	84	11	83	34	0	37	28	1.58
1382967--1383031	32	2.0	33	87	3	96	29	15	16	38	1.90
1382997--1383054	21	3.0	20	80	10	66	34	13	17	34	1.89
1383099--1383129	13	2.4	13	94	0	53	35	16	12	35	1.87
1383086--1383149	33	1.9	32	87	12	94	37	14	17	31	1.89
1386677--1386716	3	13.3	3	94	0	71	30	32	0	37	1.58
1387850--1387894	23	2.0	24	82	8	58	35	22	13	28	1.92
1388352--1388399	19	2.5	20	82	3	62	33	16	14	35	1.89
1389976--1390019	23	1.9	24	86	9	65	40	22	6	29	1.80
1390502--1390551	19	2.5	20	87	3	66	40	18	14	28	1.89
1390648--1390688	21	2.0	21	90	0	64	34	7	7	51	1.58
1392542--1392566	13	1.9	13	100	0	50	32	16	16	36	1.90
1392554--1392606	20	2.6	20	81	3	61	41	15	15	28	1.87
1392640--1392691	20	2.7	20	90	3	79	38	21	11	28	1.88
1396585--1396616	15	2.1	15	94	0	55	46	15	21	15	1.83
1401249--1401310	32	1.9	33	90	3	99	41	12	14	30	1.83
1401414--1401439	13	2.0	13	100	0	52	38	15	15	30	1.88
1401396--1401459	32	2.0	33	87	3	94	42	15	14	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401204--1401511	147	2.1	147	96	0	571	34	16	18	31	1.93
1404284--1404308	13	1.9	13	100	0	50	32	20	16	32	1.94
1405993--1406041	21	2.3	21	100	0	98	28	4	18	48	1.66
1406152--1406208	26	2.1	28	93	6	100	42	3	21	33	1.70
1406838--1406890	20	2.7	20	91	2	81	30	16	18	33	1.94
1406919--1406987	33	2.1	33	89	5	104	33	11	18	36	1.87
1406953--1407129	72	2.5	72	92	0	300	37	15	13	32	1.87
1416194--1416828	49	12.8	49	81	6	690	32	18	26	23	1.97
1416144--1416828	101	6.9	100	82	7	718	32	17	26	23	1.97
1416195--1416828	249	2.6	241	88	3	894	32	18	26	23	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28